Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021225.1 Corchorus olitorius cultivar O-4 contig21258, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 2640
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30


Found at i:548 original size:54 final size:54

Alignment explanation


    Indices: 462--584  Score: 183
    Period size: 54  Copynumber: 2.3  Consensus size: 54

        452 AAGTGTACCT

                     **          * *   *                   *      
        462 CAAATGACCAAAATGCCCCTATATGTGTAAATGACCAAAATGCCCCTTGACATG
          1 CAAATGACCCCAATGCCCCTAGACGTGCAAATGACCAAAATGCCCCTGGACATG

                                *                                 
        516 CAAATGACCCCAATGCCCCTGGACGTGCAAATGACCAAAATGCCCCTGGACATG
          1 CAAATGACCCCAATGCCCCTAGACGTGCAAATGACCAAAATGCCCCTGGACATG

                           
        570 CAAATGACCCCAATG
          1 CAAATGACCCCAATG

        585 TTAAATAATA


Statistics
Matches: 62,  Mismatches: 7, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  54   62  1.00

ACGTcount: A:0.35, C:0.30, G:0.17, T:0.18


Consensus pattern (54 bp):   
CAAATGACCCCAATGCCCCTAGACGTGCAAATGACCAAAATGCCCCTGGACATG

Found at i:584 original size:27 final size:27

Alignment explanation


    Indices: 462--578  Score: 153
    Period size: 27  Copynumber: 4.3  Consensus size: 27

        452 AAGTGTACCT

                                ** **  
        462 CAAATGACCAAAATGCCCCTATATGTG
          1 CAAATGACCAAAATGCCCCTGGACATG

            *                   *      
        489 TAAATGACCAAAATGCCCCTTGACATG
          1 CAAATGACCAAAATGCCCCTGGACATG

                     **             *  
        516 CAAATGACCCCAATGCCCCTGGACGTG
          1 CAAATGACCAAAATGCCCCTGGACATG

                                       
        543 CAAATGACCAAAATGCCCCTGGACATG
          1 CAAATGACCAAAATGCCCCTGGACATG

                     
        570 CAAATGACC
          1 CAAATGACC

        579 CCAATGTTAA


Statistics
Matches: 77,  Mismatches: 13, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  27   77  1.00

ACGTcount: A:0.35, C:0.30, G:0.17, T:0.18


Consensus pattern (27 bp):   
CAAATGACCAAAATGCCCCTGGACATG
Done.